Year 2019: Difference between revisions

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imported>Lab
imported>Lab
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# Map gene names
# Map gene names
# Cluster and show by interactive heatmaps in R
# Cluster and show by interactive heatmaps in R
##  [http://diverge.hunter.cuny.edu/~weigang/heatmap_td.html Heatmap 1. Scaled perl row]
##  [http://diverge.hunter.cuny.edu/~weigang/heatmap_td.html Heatmap 1. Scaled per row]
## [http://diverge.hunter.cuny.edu/~weigang/heatmap_fc_td.html heatmap of top differentiately expressed genes (p<0.001, 1e-3). Values are Fold Change over mean Wild Tyoe]
## [http://diverge.hunter.cuny.edu/~weigang/heatmap_fc_td.html heatmap of top differentiately expressed genes (p<0.001, 1e-3). Values are Fold Change over mean Wild Tyoe]

Revision as of 21:20, 7 February 2019

TD Project

  • Credit: Christopher Panlasigui
  • Main computational steps:
  1. Quantile normalization between all replicates (with log2 transformatuon)
  2. Linear model among the 3 groups
  3. Select top significant genes
  4. Map gene names
  5. Cluster and show by interactive heatmaps in R
    1. Heatmap 1. Scaled per row
    2. heatmap of top differentiately expressed genes (p<0.001, 1e-3). Values are Fold Change over mean Wild Tyoe